8EJV

The crystal structure of Pseudomonas putida PcaR in complex with succinate

Summary for 8EJV

• Entry DOI: 10.2210/pdb8ejv/pdb
• Related: 8EJU
• Descriptor: Transcription regulatory protein (Pca regulon), SUCCINIC ACID, 1,2-ETHANEDIOL, ... (6 entities in total)
• Functional Keywords: complex, transcription factor, succinate, gene regulation, transcription
• Biological source: Pseudomonas putida KT2440
• Total number of polymer chains: 2
• Total formula weight: 64056.18

Authors

Pham, C.,Skarina, T.,Di Leo, R.,Stogios, P.J.,Mahadevan, R.,Savchenko, A. (deposition date: 2022-09-19, release date: 2024-03-20, Last modification date: 2025-08-13)

Primary citation

Pham, C.,Nasr, M.A.,Skarina, T.,Di Leo, R.,Kwan, D.H.,Martin, V.J.J.,Stogios, P.J.,Mahadevan, R.,Savchenko, A.
Functional and structural characterization of an IclR family transcription factor for the development of dicarboxylic acid biosensors.
Febs J., 291:3481-3498, 2024

PubMed Abstract: Prokaryotic transcription factors (TFs) regulate gene expression in response to small molecules, thus representing promising candidates as versatile small molecule-detecting biosensors valuable for synthetic biology applications. The engineering of such biosensors requires thorough in vitro and in vivo characterization of TF ligand response as well as detailed molecular structure information. In this work, we functionally and structurally characterize the Pca regulon regulatory protein (PcaR) transcription factor belonging to the IclR transcription factor family. Here, we present in vitro functional analysis of the ligand profile of PcaR and the construction of genetic circuits for the characterization of PcaR as an in vivo biosensor in the model eukaryote Saccharomyces cerevisiae. We report the crystal structures of PcaR in the apo state and in complex with one of its ligands, succinate, which suggests the mechanism of dicarboxylic acid recognition by this transcription factor. This work contributes key structural and functional insights enabling the engineering of PcaR for dicarboxylic acid biosensors, in addition to providing more insights into the IclR family of regulators.

PubMed: 38696354
DOI: 10.1111/febs.17149

Experimental method

X-RAY DIFFRACTION (2.43 Å)